Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 142 of 182
Found at i:43629004 original size:26 final size:26
Alignment explanation
Indices: 43628968--43629077 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
43628958 CATGAAATTC
*
43628968 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
43628994 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43629020 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
43629046 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
43629072 TTATCA
1 TTATCA
43629078 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:43629088 original size:10 final size:10
Alignment explanation
Indices: 43629073--43629104 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
43629063 CCTAACCTAT
43629073 TATCAATTTG
1 TATCAATTTG
43629083 TATCAATTTG
1 TATCAATTTG
*
43629093 TATTAATTTG
1 TATCAATTTG
43629103 TA
1 TA
43629105 CCATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (10 bp):
TATCAATTTG
Found at i:43637750 original size:33 final size:33
Alignment explanation
Indices: 43637713--43637835 Score: 101
Period size: 33 Copynumber: 3.7 Consensus size: 33
43637703 AATATATGTT
*
43637713 TAAGACCATAGCTAGGCTATGGCATCC-TGA-TG
1 TAAGACCATAGCTAGGCTATGGCA-CCACGAGTG
* * *
43637745 ATAAGACCATATCTGGGATATGGCACCACGAGTG
1 -TAAGACCATAGCTAGGCTATGGCACCACGAGTG
* * **
43637779 TAAGACCATGGCTAGGCCATGGCAATAC-ACGTG
1 TAAGACCATAGCTAGGCTATGGCACCACGA-GTG
*
43637812 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
43637836 TCATACCAGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
32 6 0.08
33 64 0.89
34 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCACCACGAGTG
Found at i:43637898 original size:45 final size:45
Alignment explanation
Indices: 43637849--43637960 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
43637839 TACCAGAAAT
*
43637849 GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAAAC
1 GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
* * * *
43637894 GAGTAAGACCATAGCTGAAAGATGCTATGACATCGCGATTCAAAT
1 GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
* * *
43637939 GTGTAAAACCATGGTTGAAAGA
1 GAGTAAGACCATAGTTGAAAGA
43637961 TACCATGGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAAC
Found at i:43637961 original size:45 final size:46
Alignment explanation
Indices: 43637845--43638109 Score: 264
Period size: 46 Copynumber: 5.8 Consensus size: 46
43637835 ATCATACCAG
* * ** * *
43637845 AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * * * * * * *
43637890 AAACGAGTAAGACCATAGCTGAAAGATGCTATGACATCGCGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
43637935 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
43637981 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * *
43638027 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
***
43638073 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
43638110 TATGACGGGG
Statistics
Matches: 193, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
45 72 0.37
46 121 0.63
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
Found at i:43638000 original size:46 final size:46
Alignment explanation
Indices: 43637935--43638181 Score: 298
Period size: 46 Copynumber: 5.3 Consensus size: 46
43637925 ATCGCGATTC
*
43637935 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
43637981 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
43638027 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*** * ***
43638073 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATG
*** * * * *
43638120 AAATACATAAGACCATGGGTGAAAGATACTATGGCAACCTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
43638165 AAAATGAGTAAGACCAT
1 -AAATGTGTAAGACCAT
43638182 ATTTGAAACA
Statistics
Matches: 176, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 137 0.78
47 38 0.22
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:43640957 original size:29 final size:31
Alignment explanation
Indices: 43640908--43640972 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
43640898 TTTTATAGTT
*
43640908 TTTTAATTAGATAATTATTATT-TATTTAATA
1 TTTTAATAAGATAATTATTATTAT-TTTAATA
*
43640939 TTTTAATAAGAT-ATT-TTATTATTTTATTA
1 TTTTAATAAGATAATTATTATTATTTTAATA
43640968 TTTTA
1 TTTTA
43640973 TTTAGTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.52
30 4 0.13
31 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTAATAAGATAATTATTATTATTTTAATA
Found at i:43640961 original size:8 final size:8
Alignment explanation
Indices: 43640950--43640974 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43640940 TTTAATAAGA
43640950 TATTTTAT
1 TATTTTAT
43640958 TATTTTAT
1 TATTTTAT
43640966 TATTTTAT
1 TATTTTAT
43640974 T
1 T
43640975 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43644672 original size:14 final size:14
Alignment explanation
Indices: 43644655--43644682 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43644645 TTAAAGTAAG
43644655 AATTAAGAACACAT
1 AATTAAGAACACAT
43644669 AATTAAGAACACAT
1 AATTAAGAACACAT
43644683 CAAGTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:43651632 original size:40 final size:38
Alignment explanation
Indices: 43651540--43651636 Score: 95
Period size: 40 Copynumber: 2.5 Consensus size: 38
43651530 ACCATCTCCG
* *
43651540 TCCAACCCAACACACCCTGTGGGGATAAAATCAACCAA
1 TCCAACCCAACACACCATATGGGGATAAAATCAACCAA
* * ** * * *
43651578 CCCATCCCTGCACACCGTATATGGGGATATAATCGACCCA
1 TCCAACCCAACACACC--ATATGGGGATAAAATCAACCAA
43651618 TCCAACCCAACACACCATA
1 TCCAACCCAACACACCATA
43651637 AAATACCACA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 15 0.34
40 29 0.66
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.15
Consensus pattern (38 bp):
TCCAACCCAACACACCATATGGGGATAAAATCAACCAA
Found at i:43653000 original size:15 final size:15
Alignment explanation
Indices: 43652980--43653010 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43652970 ACCTAAAGTC
43652980 AGGCTTTACTCAAAT
1 AGGCTTTACTCAAAT
43652995 AGGCTTTACTCAAAT
1 AGGCTTTACTCAAAT
43653010 A
1 A
43653011 AAACCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AGGCTTTACTCAAAT
Found at i:43660181 original size:34 final size:34
Alignment explanation
Indices: 43660133--43660201 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
43660123 TAAAACTTGA
43660133 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
1 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
*
43660167 ACTTGGGACCTCCCAAACACACCCCAAAGCACAT
1 ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
43660201 A
1 A
43660202 ACCTCTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.41, G:0.10, T:0.12
Consensus pattern (34 bp):
ACTTAGGACCTCCCAAACACACCCCAAAGCACAT
Found at i:43665765 original size:29 final size:29
Alignment explanation
Indices: 43665728--43665809 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
43665718 TAGAATTTTT
* * * *
43665728 AATTGTAAAAAATAATAGAATTTATTAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* *
43665757 AATTATAAAATATTATAAAAATTATCAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* * *
43665786 AATCATAAAAAATTATTAAAATTA
1 AATTATAAAAAATAATAAAAATTA
43665810 AAAAAAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTATAAAAAATAATAAAAATTATCAGA
Found at i:43665778 original size:19 final size:18
Alignment explanation
Indices: 43665756--43665807 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
43665746 AATTTATTAG
43665756 AAATTATAAAAT-ATTATAA
1 AAATTATAAAATCA-TA-AA
43665775 AAATTATCAGAAATCATAAA
1 AAATTAT-A-AAATCATAAA
43665795 AAATTATTAAAAT
1 AAATTA-TAAAAT
43665808 TAAAAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 11 0.38
20 10 0.34
21 7 0.24
22 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATCATAAA
Found at i:43667399 original size:30 final size:29
Alignment explanation
Indices: 43667365--43667422 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
43667355 TAACTTAAAT
* *
43667365 AAATAACTAATAACATATTAATAATTTTAA
1 AAATAAATAATAACAAATTAAT-ATTTTAA
* *
43667395 AAATAAATAATTATAAATTAATATTTTA
1 AAATAAATAATAACAAATTAATATTTTA
43667423 TGACATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATAAATAATAACAAATTAATATTTTAA
Found at i:43671485 original size:22 final size:24
Alignment explanation
Indices: 43671442--43671507 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
43671432 TTTTCTCATG
43671442 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAA-TGTTTTAT
* * *
43671467 TATTGTTTATTTTAAGT-TTTTCACA
1 TATTATTTATTTTAAATGTTTT-A-T
*
43671492 TATTATATATTTTAAA
1 TATTATTTATTTTAAA
43671508 CTAATTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 27 0.82
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTTAAATGTTTTAT
Found at i:43671724 original size:26 final size:24
Alignment explanation
Indices: 43671695--43671791 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 24
43671685 TCATATATTA
* *
43671695 TTAAGTTGTGTTATGTATTATTTGTT
1 TTAA-TTGTTTTATATATTATTT-TT
*
43671721 TTAAATTGTTTTGTATATTATTCTTT
1 TT-AATTGTTTTATATATTATT-TTT
*
43671747 TTAATTGTTTTACATATTATTTATCT
1 TTAATTGTTTTATATATTATTT-T-T
*
43671773 TAAATTGTTTTATACTATT
1 TTAATTGTTTTATA-TATT
43671792 TACTTCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.02
25 18 0.31
26 33 0.56
27 7 0.12
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (24 bp):
TTAATTGTTTTATATATTATTTTT
Found at i:43671753 original size:25 final size:26
Alignment explanation
Indices: 43671710--43671784 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
43671700 TTGTGTTATG
**
43671710 TATTATTTGTTTTAAATTGTTTTGTA
1 TATTATTTGTTTTAAATTGTTTTACA
43671736 TATTATTCT-TTTT-AATTGTTTTACA
1 TATTATT-TGTTTTAAATTGTTTTACA
* *
43671761 TATTATTTATCTTAAATTGTTTTA
1 TATTATTTGTTTTAAATTGTTTTA
43671785 TACTATTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 20 0.47
26 21 0.49
27 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (26 bp):
TATTATTTGTTTTAAATTGTTTTACA
Found at i:43673499 original size:30 final size:30
Alignment explanation
Indices: 43673465--43673527 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
43673455 ACTTAACAAG
43673465 CAAATG-CTTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTT-TAAAATAATAAGAAAA-TTAA
43673495 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
43673525 CAA
1 CAA
43673528 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:43675759 original size:13 final size:13
Alignment explanation
Indices: 43675741--43675797 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
43675731 TATTTACAAT
*
43675741 AAATAAATAAGCC
1 AAATAAATAAACC
43675754 AAATAAATAAACC
1 AAATAAATAAACC
* *
43675767 AAATAGAT-TA--
1 AAATAAATAAACC
43675777 AAATAAATAAACC
1 AAATAAATAAACC
43675790 AAAATAAA
1 -AAATAAA
43675798 AAGCCCAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 1 0.03
13 19 0.54
14 7 0.20
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACC
Found at i:43685129 original size:36 final size:36
Alignment explanation
Indices: 43685089--43685160 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
43685079 TAAAAAATGT
43685089 CAATTTTGGATTAAATTGTGAAATGTGAAAATTTAG
1 CAATTTTGGATTAAATTGTGAAATGTGAAAATTTAG
*
43685125 CAATTTTGGATTAAATTGTGAAATGTGGAAATTTAG
1 CAATTTTGGATTAAATTGTGAAATGTGAAAATTTAG
43685161 TGGTTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.39
Consensus pattern (36 bp):
CAATTTTGGATTAAATTGTGAAATGTGAAAATTTAG
Found at i:43686387 original size:43 final size:43
Alignment explanation
Indices: 43686308--43686463 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
43686298 TTCGGGCCTC
* * * * *
43686308 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGTTTCG
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCGGGATTCG
*
43686352 GGCCTAGCAGGCTATAATGCCGGTGAGATAATATCGGGATTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
* * * * *
43686395 GGCCTAGCAGGCTATAATACGGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
* * *
43686438 AGCTTAGCAGGCGA-AATGCCGGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
43686464 TGAGTTCAGA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 10 0.11
43 62 0.66
44 16 0.17
45 6 0.06
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
Found at i:43692273 original size:52 final size:49
Alignment explanation
Indices: 43692211--43692371 Score: 152
Period size: 46 Copynumber: 3.3 Consensus size: 49
43692201 TGTGATTTCC
*
43692211 GTATAAGACCATAGCTGGGCTATGGCTTCGAAGAAATGTGATATGTGCTACT
1 GTATAAGACCATAGCTGGGCTATGGCATCG-AG--ATGTGATATGTGCTACT
* * * *
43692263 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATACGTGAT-CT
1 GTATAAGACCATAGCTGGGCTATGGCATCGAGATGTGATATGTGCTACT
* * *
43692309 GTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTGACTA-T
1 GTATAAGACCATAGCTGGGCTATGGCATCGAG-ATGTGATATGTG-CTACT
**
43692358 GTGCAAGACCATAG
1 GTATAAGACCATAG
43692372 TTTTACTATG
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.30
47 11 0.12
48 10 0.11
49 14 0.16
50 2 0.02
52 26 0.29
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (49 bp):
GTATAAGACCATAGCTGGGCTATGGCATCGAGATGTGATATGTGCTACT
Found at i:43708787 original size:2 final size:2
Alignment explanation
Indices: 43708780--43708806 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43708770 TTTTGAGCTT
43708780 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
43708807 GTGATCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43711482 original size:27 final size:27
Alignment explanation
Indices: 43711444--43711520 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
43711434 CTACTAAGCC
*
43711444 GAATGCTTATCTTTTCCAAAATAGGCT
1 GAATGCTCATCTTTTCCAAAATAGGCT
*
43711471 GAATGCTCATCTTTTCCAAAATAGGTT
1 GAATGCTCATCTTTTCCAAAATAGGCT
* *
43711498 GAATGCTCCTCTTTTTCAAAATA
1 GAATGCTCATCTTTTCCAAAATA
43711521 AGTCGAATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (27 bp):
GAATGCTCATCTTTTCCAAAATAGGCT
Found at i:43711528 original size:27 final size:27
Alignment explanation
Indices: 43711438--43711529 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
43711428 ATGACACTAC
* *
43711438 TAAGCCGAATGCTTATCTTTTCCAAAA
1 TAAGTCGAATGCTCATCTTTTCCAAAA
*
43711465 T-AGGCTGAATGCTCATCTTTTCCAAAA
1 TAAGTC-GAATGCTCATCTTTTCCAAAA
* * * *
43711492 TAGGTTGAATGCTCCTCTTTTTCAAAA
1 TAAGTCGAATGCTCATCTTTTCCAAAA
43711519 TAAGTCGAATG
1 TAAGTCGAATG
43711530 TTCCTTTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.06
27 50 0.93
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (27 bp):
TAAGTCGAATGCTCATCTTTTCCAAAA
Found at i:43717782 original size:18 final size:18
Alignment explanation
Indices: 43717759--43717851 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
43717749 TACGACCGTT
* *
43717759 TACGGTATTATTCATGTA
1 TACGGTACTATTCACGTA
43717777 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
43717795 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
43717813 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
43717831 TACGGTATTGTTCACGTA
1 TACGGTACTATTCACGTA
43717849 TAC
1 TAC
43717852 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:43726531 original size:6 final size:6
Alignment explanation
Indices: 43726522--43726554 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
43726512 TAATTCATGA
43726522 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
1 GGGCTG GGGCTG GGGCTG GGGCTG GGGCTG GGG
43726555 GCTCATTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGCTG
Found at i:43730216 original size:23 final size:21
Alignment explanation
Indices: 43730181--43730222 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
43730171 ACCAACTTAC
43730181 ATATTGGTATGAGAATGAGGT
1 ATATTGGTATGAGAATGAGGT
*
43730202 ATATTGTGATATGAGTATGAG
1 ATATTG-G-TATGAGAATGAG
43730223 TGTTATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (21 bp):
ATATTGGTATGAGAATGAGGT
Found at i:43731659 original size:21 final size:21
Alignment explanation
Indices: 43731623--43731691 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
43731613 TATATTAATT
*
43731623 AAAA-CAT-AAAGTAAATAAAC
1 AAAAGCATAAAAG-AAATAAAA
43731643 AAAAGCATAAAAGAAATGAAAA
1 AAAAGCATAAAAGAAAT-AAAA
*
43731665 AGAAAGGATAAACAG-AATAAAA
1 A-AAAGCATAAA-AGAAATAAAA
43731687 GAAAA
1 -AAAA
43731692 CGAAACAGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 4 0.10
21 7 0.17
22 15 0.37
23 13 0.32
24 2 0.05
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.10
Consensus pattern (21 bp):
AAAAGCATAAAAGAAATAAAA
Found at i:43733366 original size:20 final size:19
Alignment explanation
Indices: 43733338--43733379 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
43733328 ATATTATATG
* *
43733338 AAATGAAAGTAATAAAAATA
1 AAATAAAAGGAAT-AAAATA
43733358 AAATAAAAGGAATAAAATA
1 AAATAAAAGGAATAAAATA
43733377 AAA
1 AAA
43733380 CCACTTGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (19 bp):
AAATAAAAGGAATAAAATA
Found at i:43735161 original size:39 final size:39
Alignment explanation
Indices: 43735116--43735253 Score: 224
Period size: 39 Copynumber: 3.5 Consensus size: 39
43735106 TGCAAGATAC
*
43735116 TGGAAATGTATCCGGGCTAAAGTCTTGCAGGCTTCGTGA
1 TGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGA
* *
43735155 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGA
*
43735194 TGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTCGTGCA
1 TGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG-A
43735234 -GGAAATGTATCCGGGCTAAA
1 TGGAAATGTATCCGGGCTAAA
43735254 ATCCCGTAAG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGA
Found at i:43735213 original size:78 final size:78
Alignment explanation
Indices: 43735115--43735259 Score: 247
Period size: 78 Copynumber: 1.9 Consensus size: 78
43735105 ATGCAAGATA
* *
43735115 CTGGAAATGTATCCGGGCTAAAGTCTTGCAGGCTTCGTG-ATGGAAATGTATCCGGGCTAAAGTC
1 CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCA-GGAAATGTATCCGGGCTAAAATC
43735179 CCGCAGGCTTCGTG
65 CCGCAGGCTTCGTG
*
43735193 CTGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTCGTGCAGGAAATGTATCCGGGCTAAAATCC
1 CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCAGGAAATGTATCCGGGCTAAAATCC
43735258 CG
66 CG
43735260 TAAGCTTTGT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 62 0.98
79 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (78 bp):
CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCAGGAAATGTATCCGGGCTAAAATCC
CGCAGGCTTCGTG
Found at i:43738678 original size:16 final size:16
Alignment explanation
Indices: 43738657--43738688 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43738647 TGAAATTCGC
43738657 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
43738673 TTAACAAAATAGTCCT
1 TTAACAAAATAGTCCT
43738689 AAAATATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
TTAACAAAATAGTCCT
Found at i:43741321 original size:43 final size:42
Alignment explanation
Indices: 43741273--43741434 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
43741263 AGTAAATACA
*
43741273 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
* * *
43741316 ATGCCACTGTCCCAGACAG-GGTCTTACATGAAATC-ATATACG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACACGTAATCAAAAT-CG
* * * * * *
43741358 AAGACACTATCCCAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCACTGTCCCAGACGTGGTCTTACACGT-AATCA-AAATCG
* *
43741402 ATGCCAAC-GTCCCAAACGTGGCCTTACACGTAA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACGTAA
43741435 AACAGATATC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 34 0.36
44 25 0.27
45 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:43741383 original size:42 final size:43
Alignment explanation
Indices: 43741282--43741385 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
43741272 AATGCCAACG
* * * * *
43741282 TCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAACATCGAAGACACTA
* * *
43741325 TCCCAGACAGGGTCTTACATGAAATCATATA-CGAAGACACTA
1 TCCCAGACATGGTCTTACATGAAATCAAACATCGAAGACACTA
43741367 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
43741386 CGTAAAACAG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCAAACATCGAAGACACTA
Found at i:43743780 original size:18 final size:17
Alignment explanation
Indices: 43743759--43743792 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43743749 TAATTCTACT
43743759 CAAAAATAATTTTTGATC
1 CAAAAAT-ATTTTTGATC
*
43743777 CAAAAGTATTTTTGAT
1 CAAAAATATTTTTGAT
43743793 AAATAATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAAATATTTTTGATC
Found at i:43767318 original size:14 final size:14
Alignment explanation
Indices: 43767299--43767326 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43767289 TCAATTTATT
43767299 AATGAATTATTAAA
1 AATGAATTATTAAA
43767313 AATGAATTATTAAA
1 AATGAATTATTAAA
43767327 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:43768999 original size:22 final size:22
Alignment explanation
Indices: 43768966--43769019 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
43768956 TTTTAATTTG
* *
43768966 AAAAAATTAAA-TCCTAATTACT
1 AAAAAA-TAAATTCCTAATAACC
43768988 AAAGAAATAAATTCCTAATAACC
1 AAA-AAATAAATTCCTAATAACC
43769011 AAAAAATAA
1 AAAAAATAA
43769020 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.61, C:0.13, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAATAAATTCCTAATAACC
Found at i:43780115 original size:28 final size:28
Alignment explanation
Indices: 43780075--43780284 Score: 334
Period size: 28 Copynumber: 7.5 Consensus size: 28
43780065 TAAATTGTAC
43780075 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
43780103 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
43780131 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
43780159 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
43780187 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
43780215 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
43780243 AGCACTAAGTGTGCGAG-TTGATTACT-T
1 AGCACTAAGTGTGCGAGCTTGATTA-TGT
*
43780270 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43780285 GACTTAATAA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
27 22 0.13
28 148 0.87
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:43780144 original size:56 final size:56
Alignment explanation
Indices: 43780047--43780284 Score: 374
Period size: 56 Copynumber: 4.2 Consensus size: 56
43780037 CATGAGATTG
* * *
43780047 GCACTAAGTGTGCGGGTTTAAAT-TGTACAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGT--AGCACTAAGTGTGCGAGCTTGATTATGTA
43780104 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
43780160 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
* *
43780216 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTACT-TA
1 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTA-TGTA
*
43780271 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43780285 GACTTAATAA
Statistics
Matches: 173, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
55 22 0.13
56 128 0.74
57 20 0.12
58 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGCTTGATTATGTA
Found at i:43780189 original size:84 final size:83
Alignment explanation
Indices: 43780047--43780284 Score: 334
Period size: 84 Copynumber: 2.8 Consensus size: 83
43780037 CATGAGATTG
* * * * *
43780047 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAG
1 GCACTAAGTGTGCGAGCTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAG
*
43780112 TGTGCGAGTTTGACTATGTA
64 TGTGCGAGCTTGACTATGTA
* *
43780132 GCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGT
*
43780197 GTGCGAGCTTGATTATGTA
65 GTGCGAGCTTGACTATGTA
* *
43780216 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTACT-TAGCACTGAGT
1 GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAGTTGATTA-TGTAGCACTAAGT
43780280 GTGCG
65 GTGCG
43780285 GACTTAATAA
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 21 0.15
84 100 0.72
85 17 0.12
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (83 bp):
GCACTAAGTGTGCGAGCTTGATTATATAGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTG
TGCGAGCTTGACTATGTA
Found at i:43807047 original size:30 final size:31
Alignment explanation
Indices: 43806992--43807059 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
43806982 ACCCTTAAAA
* * * **
43806992 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAGCCCCTCAAATTTTGAG
43807023 TATTTACACT-TTAGCCCCTCAAATTTTGAG
1 TATTTACACTATTAGCCCCTCAAATTTTGAG
43807053 TATTTAC
1 TATTTAC
43807060 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAGCCCCTCAAATTTTGAG
Found at i:43822948 original size:47 final size:47
Alignment explanation
Indices: 43822895--43823258 Score: 638
Period size: 47 Copynumber: 7.7 Consensus size: 47
43822885 TTAGGATTCT
43822895 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43822942 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43822989 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43823036 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
43823083 ATGTGATGAATGTGAAAGTGTATATATGTGATAACGACTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
43823130 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
43823177 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
43823224 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
43823259 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 303 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:43823433 original size:37 final size:37
Alignment explanation
Indices: 43823377--43823455 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43823367 CCGAGCTCTA
* * *
43823377 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43823414 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43823451 AAGAC
1 AAGAC
43823456 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43828242 original size:110 final size:110
Alignment explanation
Indices: 43828077--43828406 Score: 626
Period size: 110 Copynumber: 3.0 Consensus size: 110
43828067 TGTAACTACG
43828077 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
1 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
43828142 ATCGGTACCAAAATATCATTCTATTTCTCGTCTAAAAGTCAAATC
66 ATCGGTACCAAAATATCATTCTATTTCTCGTCTAAAAGTCAAATC
43828187 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
1 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
43828252 ATCGGTACCAAAATATCATTCTATTTCTCGTCTAAAAGTCAAATC
66 ATCGGTACCAAAATATCATTCTATTTCTCGTCTAAAAGTCAAATC
*
43828297 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGAAAA
1 TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
*
43828362 ATCGATACCAAAATAGT-ATTCTATTTCTCGTCTAAAAGTCAAATC
66 ATCGGTACCAAAATA-TCATTCTATTTCTCGTCTAAAAGTCAAATC
43828407 CTAAAAAAGA
Statistics
Matches: 217, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
110 216 1.00
111 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (110 bp):
TAGGTATCGATACTGAAACAAAATTATCGATATTTCCTTCATATGTTATCGATACTGATTGGAAA
ATCGGTACCAAAATATCATTCTATTTCTCGTCTAAAAGTCAAATC
Found at i:43829172 original size:40 final size:40
Alignment explanation
Indices: 43829113--43829192 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
43829103 TGTTGAGAGC
*
43829113 TGGATAGAAGAAAGTTGTCATCCTTGAATTCTCTCTATTT
1 TGGATAGAAGAAAGCTGTCATCCTTGAATTCTCTCTATTT
43829153 TGGATAGAAGAAAGCTGTCATCCTTGAATTCTCTCTATTT
1 TGGATAGAAGAAAGCTGTCATCCTTGAATTCTCTCTATTT
43829193 CTTATCTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (40 bp):
TGGATAGAAGAAAGCTGTCATCCTTGAATTCTCTCTATTT
Found at i:43831909 original size:23 final size:23
Alignment explanation
Indices: 43831879--43831925 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43831869 AACATATTGG
43831879 GTTTTGAGCCAAATCTTCTTTTA
1 GTTTTGAGCCAAATCTTCTTTTA
43831902 GTTTTGAGCCAAATCTTCTTTTA
1 GTTTTGAGCCAAATCTTCTTTTA
43831925 G
1 G
43831926 GTTTACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (23 bp):
GTTTTGAGCCAAATCTTCTTTTA
Found at i:43838218 original size:50 final size:50
Alignment explanation
Indices: 43838094--43838340 Score: 192
Period size: 50 Copynumber: 4.8 Consensus size: 50
43838084 GATAATAACA
* * ** * * *
43838094 TGCCAAAGCCATGTCCCAGACATGGTCCTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
** * * * **
43838143 TGCCAATACAATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** ** *
43838193 TGCCCATGTTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
43838243 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
43838299 TGCCAATGCCACGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43838341 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 78 0.50
53 2 0.01
56 40 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:43844331 original size:25 final size:25
Alignment explanation
Indices: 43844293--43844357 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
43844283 TATACGAGTA
* *
43844293 TATAATCGAGAAGCTCATTTGAGCTG
1 TATAA-CGGGAAGCTCATGTGAGCTG
43844319 TATAACGGGAAGCTCATGTGAGCTG
1 TATAACGGGAAGCTCATGTGAGCTG
* *
43844344 TATAGCAGGAAGCT
1 TATAACGGGAAGCT
43844358 TATAAGAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (25 bp):
TATAACGGGAAGCTCATGTGAGCTG
Found at i:43844491 original size:50 final size:49
Alignment explanation
Indices: 43844369--43844491 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 49
43844359 ATAAGAGTCG
* * * *
43844369 TAATCGGGAAGCTCATACGAGCCAATATCAAGAAGCTCCAGAGCGCCAT
1 TAATCAGGAAGCTCATACGAGCCAATATCAAGAAGCTCCAAAGAGCAAT
* ** *
43844418 TAATCAGGAAGCTCATGA-AAGCCAATTATCGGGAAGCTCTAAAGAGTCAAT
1 TAATCAGGAAGCTCAT-ACGAGCCAA-TATCAAGAAGCTCCAAAGAG-CAAT
*
43844469 T-ATTAGGAAGCTCATACGAGCCA
1 TAATCAGGAAGCTCATACGAGCCA
43844492 TAAACAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
49 22 0.37
50 34 0.57
51 4 0.07
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (49 bp):
TAATCAGGAAGCTCATACGAGCCAATATCAAGAAGCTCCAAAGAGCAAT
Found at i:43844537 original size:25 final size:25
Alignment explanation
Indices: 43844509--43844588 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
43844499 AAAGCTCAAG
43844509 AGAGCCATATAACGGGATGCTCATA
1 AGAGCCATATAACGGGATGCTCATA
* * * * * * *
43844534 AGAGCTAAATAATGCGAAGCTCGTG
1 AGAGCCATATAACGGGATGCTCATA
* *
43844559 AGAGCC-TATTATCAGGATGCTCATA
1 AGAGCCATA-TAACGGGATGCTCATA
43844584 AGAGC
1 AGAGC
43844589 TGTGGTGTGT
Statistics
Matches: 38, Mismatches: 16, Indels: 2
0.68 0.29 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
AGAGCCATATAACGGGATGCTCATA
Found at i:43844553 original size:99 final size:99
Alignment explanation
Indices: 43844375--43844555 Score: 217
Period size: 99 Copynumber: 1.8 Consensus size: 99
43844365 GTCGTAATCG
* * * *
43844375 GGAAGCTCATACGAGCCAATATCAAGAAGCTCCAGAGCGCCATTAATCAGGAAGCTCATGAAAGC
1 GGAAGCTCATACGAGCCAATAACAAAAAGCTCAAGAGAGCCATTAATCAGGAAGCTCATGAAAGC
* * *
43844440 CAATTATCGGGAAGCTCTAAAGAGTCAATTATTA
66 AAATAATCGCGAAGCTCTAAAGAGTCAATTATTA
* *
43844474 GGAAGCTCATACGAGCC-ATAAACAAAAAGCTCAAGAGAGCCATATAA-CGGGATGCTCAT-AAG
1 GGAAGCTCATACGAGCCAAT-AACAAAAAGCTCAAGAGAGCCAT-TAATCAGGAAGCTCATGAA-
43844536 AGCTAAATAAT-GCGAAGCTC
63 AGC-AAATAATCGCGAAGCTC
43844556 GTGAGAGCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
98 4 0.06
99 57 0.83
100 8 0.12
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (99 bp):
GGAAGCTCATACGAGCCAATAACAAAAAGCTCAAGAGAGCCATTAATCAGGAAGCTCATGAAAGC
AAATAATCGCGAAGCTCTAAAGAGTCAATTATTA
Found at i:43845443 original size:14 final size:14
Alignment explanation
Indices: 43845424--43845461 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
43845414 CTTTCCCCCT
43845424 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
43845438 TTTCTTTTGT-TTTC
1 TTTCTTTT-TCTTTC
*
43845452 TTTCTATTTC
1 TTTCTTTTTC
43845462 GTTTTGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:43845476 original size:21 final size:20
Alignment explanation
Indices: 43845430--43845477 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
43845420 CCCTTTTCTT
*
43845430 TTTCTTTC--TTTCTTTTGT
1 TTTCTTTCTATTTCTTTTGC
43845448 TTTCTTTCTATTTCGTTTTGC
1 TTTCTTTCTATTTC-TTTTGC
*
43845469 TTTGTTTCT
1 TTTCTTTCT
43845478 TTTTAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.02, C:0.17, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTCTTTCTATTTCTTTTGC
Found at i:43845488 original size:35 final size:33
Alignment explanation
Indices: 43845424--43845494 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
43845414 CTTTCCCCCT
* *
43845424 TTTCTTTTTCTTTCTTTCTTTTGTTTTCTTTCTA
1 TTTCTTTTGCTTTCTTTCTTTTGTATTCTTT-TA
*
43845458 TTTCGTTTTGCTTTGTTTCTTTT-TAATTCTTTTA
1 TTTC-TTTTGCTTTCTTTCTTTTGT-ATTCTTTTA
43845492 TTT
1 TTT
43845495 TATTATTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (33 bp):
TTTCTTTTGCTTTCTTTCTTTTGTATTCTTTTA
Found at i:43847433 original size:19 final size:20
Alignment explanation
Indices: 43847411--43847448 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
43847401 CTTAGCTAAC
*
43847411 ACTAACTATTTCC-TAACAG
1 ACTAACTATATCCTTAACAG
43847430 ACTAACTATATCCTTAACA
1 ACTAACTATATCCTTAACA
43847449 TTCATCCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (20 bp):
ACTAACTATATCCTTAACAG
Found at i:43852726 original size:105 final size:107
Alignment explanation
Indices: 43852584--43852797 Score: 387
Period size: 105 Copynumber: 2.0 Consensus size: 107
43852574 TATATTATTT
* *
43852584 TAATATTTAAGTTTGATATCATTTTTAAACTTATTATTAATACAACTTTTAAAATACAATGTATT
1 TAATATTTAAATTTGATATCATTTTTAAACTTATTATTAATACAACTTTTAAAATACAATATATT
*
43852649 A-TTTTTT-AAAAATTGTTATTAGTATTATGTAAATTCATCA
66 ATTTTTTTAAAAAATTGTTATTAATATTATGTAAATTCATCA
43852689 TAATATTTAAATTTGATATCATTTTTAAACTTATTATTAATACAACTTTTAAAATACAATATATT
1 TAATATTTAAATTTGATATCATTTTTAAACTTATTATTAATACAACTTTTAAAATACAATATATT
43852754 ATTTTTTTAAAAAATTGTTATTAATATTATGTAAATTCATCA
66 ATTTTTTTAAAAAATTGTTATTAATATTATGTAAATTCATCA
43852796 TA
1 TA
43852798 CATTAGTTTT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 64 0.62
106 6 0.06
107 34 0.33
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.49
Consensus pattern (107 bp):
TAATATTTAAATTTGATATCATTTTTAAACTTATTATTAATACAACTTTTAAAATACAATATATT
ATTTTTTTAAAAAATTGTTATTAATATTATGTAAATTCATCA
Found at i:43856677 original size:21 final size:21
Alignment explanation
Indices: 43856621--43856677 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
43856611 GTTATTCCAA
* *
43856621 AAATACAAAAAAAAAATTAAT
1 AAATACAAAAATAAAATAAAT
* **
43856642 AACT-CAAATGGTAAAATAAAT
1 AAATACAAA-AATAAAATAAAT
43856663 AAATACAAAAATAAA
1 AAATACAAAAATAAA
43856678 TATTGGTGCC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATACAAAAATAAAATAAAT
Found at i:43856818 original size:17 final size:17
Alignment explanation
Indices: 43856796--43856830 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43856786 CCCTTAGTAC
*
43856796 TGTTGCAAACATGATAT
1 TGTTGCAAACATAATAT
43856813 TGTTGCAAACATAATAT
1 TGTTGCAAACATAATAT
43856830 T
1 T
43856831 TTGGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (17 bp):
TGTTGCAAACATAATAT
Found at i:43862061 original size:27 final size:27
Alignment explanation
Indices: 43862016--43862070 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
43862006 ATTAATTTAT
*
43862016 GTAGGGGGAGGGGGAATATAGGGATAG
1 GTAGGGGGAGAGGGAATATAGGGATAG
*
43862043 GTAGGGGGAGAGGGTATATAGGGATAG
1 GTAGGGGGAGAGGGAATATAGGGATAG
43862070 G
1 G
43862071 AACGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.55, T:0.16
Consensus pattern (27 bp):
GTAGGGGGAGAGGGAATATAGGGATAG
Found at i:43863982 original size:24 final size:23
Alignment explanation
Indices: 43863954--43863998 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
43863944 AAATAAAGCC
*
43863954 TTATTATTATTATTAGTAAATATT
1 TTATTATTATTACTA-TAAATATT
43863978 TTATTATTATTACTATAAATA
1 TTATTATTATTACTATAAATA
43863999 AAGCAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTATTATTATTACTATAAATATT
Found at i:43864491 original size:21 final size:22
Alignment explanation
Indices: 43864447--43864494 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43864437 TTTATAATTT
*
43864447 TTTTATAATAATTTAATTTTAA
1 TTTTATAATAATTTAATTTAAA
* *
43864469 TTTTATATTCATTT-ATTTAAA
1 TTTTATAATAATTTAATTTAAA
43864490 TTTTA
1 TTTTA
43864495 AAAAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATAATAATTTAATTTAAA
Found at i:43865375 original size:40 final size:40
Alignment explanation
Indices: 43865311--43865387 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
43865301 AAGTCATGGG
* * * * * *
43865311 ACGTGTCAGCAAATCGCGTCCACGTCAGCGCGCTTTGCTT
1 ACGTGGCAACAAATCACGTACACGTAAGCGCGATTTGCTT
43865351 ACGTGGCAACAAATCACGTACACGTAAGCGCGATTTG
1 ACGTGGCAACAAATCACGTACACGTAAGCGCGATTTG
43865388 TGTCCATGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
ACGTGGCAACAAATCACGTACACGTAAGCGCGATTTGCTT
Found at i:43866152 original size:15 final size:15
Alignment explanation
Indices: 43866114--43866153 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
43866104 TTTTTTCTCT
43866114 AAAACCCTAAAAACC
1 AAAACCCTAAAAACC
**
43866129 CTAACCCTAAAAACC
1 AAAACCCTAAAAACC
*
43866144 AAAAACCTAA
1 AAAACCCTAA
43866154 CGTGGGAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAAAACC
Found at i:43886185 original size:25 final size:25
Alignment explanation
Indices: 43886135--43886187 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
43886125 GTTACCGGAG
* * * *
43886135 GTTGTTAGCTATTTTCTTGTTTTTA
1 GTTGTTAGCTACTTCCTTATTCTTA
43886160 GTTGTTAGCTACTTCCTTATTCTTA
1 GTTGTTAGCTACTTCCTTATTCTTA
43886185 GTT
1 GTT
43886188 AAGTAGTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.58
Consensus pattern (25 bp):
GTTGTTAGCTACTTCCTTATTCTTA
Found at i:43886871 original size:22 final size:21
Alignment explanation
Indices: 43886846--43886897 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
43886836 TTTATTAAAT
43886846 AAAATA-AAATTATAAAAACTAA
1 AAAATATAAA-TA-AAAAACTAA
*
43886868 AAAATATAAATAGAAAACTAA
1 AAAATATAAATAAAAAACTAA
43886889 AAAATATAA
1 AAAATATAA
43886898 CATTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 17 0.61
22 8 0.29
23 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATATAAATAAAAAACTAA
Found at i:43887025 original size:20 final size:19
Alignment explanation
Indices: 43886992--43887030 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
43886982 GAAATTAAAA
43886992 TATTATTTCTTTTAATTTTT
1 TATTATTTCTTTT-ATTTTT
43887012 TATTATTT-TATTTATTTTT
1 TATTATTTCT-TTTATTTTT
43887031 GTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTATTTCTTTTATTTTT
Found at i:43888777 original size:7 final size:7
Alignment explanation
Indices: 43888765--43888789 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43888755 AGTCGATTGA
43888765 TATTTAG
1 TATTTAG
43888772 TATTTAG
1 TATTTAG
43888779 TATTTAG
1 TATTTAG
43888786 TATT
1 TATT
43888790 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:43889943 original size:25 final size:25
Alignment explanation
Indices: 43889908--43889955 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43889898 CATTTTGATA
43889908 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
43889933 TTATTTTATGTAATGAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
43889956 ATTTTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:43890016 original size:23 final size:22
Alignment explanation
Indices: 43889994--43890798 Score: 606
Period size: 23 Copynumber: 36.1 Consensus size: 22
43889984 AACCATTAAT
43889994 ACCCTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* ** *
43890016 TCTAATTTAA-TTAAAAACCTTAA
1 AC--CCTTAACTTAAAAACCCTAA
*
43890039 ACCCTTAACTTAAAAACTCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
43890060 ACCTAATTAACTTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAA
*
43890084 CCCCCTTAACTTAAAAACCCT-A
1 -ACCCTTAACTTAAAAACCCTAA
* *
43890106 ACCTAATTAACTTTAAAACCCT-A
1 ACC--CTTAACTTAAAAACCCTAA
* *
43890129 ACCTAATTAAATTAAAAACCCT-A
1 ACC--CTTAACTTAAAAACCCTAA
** *
43890152 ACTTAATTTAA-TTAAAAATCCTAA
1 AC---CCTTAACTTAAAAACCCTAA
*
43890176 ACCCTAAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
43890197 A-CC-TAATTTAATTAAA----AA
1 ACCCTTAACTTAA--AAACCCTAA
* *
43890215 ACCCTAAACTTAAAAACACTAA
1 ACCCTTAACTTAAAAACCCTAA
*
43890237 CCACCTTAACTTAAAAACCCT-A
1 AC-CCTTAACTTAAAAACCCTAA
*
43890259 ACCTAATTAACTTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAA
*
43890283 CCCCCTTAACTTAAAAACCCT-A
1 -ACCCTTAACTTAAAAACCCTAA
* *
43890305 ACCTAATTAACTTTAAAACCCT-A
1 ACC--CTTAACTTAAAAACCCTAA
* *
43890328 ACCTAATTAAATTAAAAACCCT-A
1 ACC--CTTAACTTAAAAACCCTAA
** *
43890351 ACTTAATTTAA-TTAAAAATCCTAA
1 AC---CCTTAACTTAAAAACCCTAA
*
43890375 ACCCTAAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
* *
43890396 ACCTAATTTAA-TTAAAAACTCT-A
1 ACC---CTTAACTTAAAAACCCTAA
* *
43890419 ACCCTAAACTTAAAAAACCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
43890441 CCCCCTGAACTTAAAAACCCT-A
1 -ACCCTTAACTTAAAAACCCTAA
*
43890463 ACCTAATTAACTTAAAAACCCT-A
1 ACC--CTTAACTTAAAAACCCTAA
*
43890486 ACCTAATTAACTTAAAAACCCTAA
1 ACC--CTTAACTTAAAAACCCTAA
*
43890510 CCCCATTAACTTAAAAACCCT-A
1 ACCC-TTAACTTAAAAACCCTAA
*
43890532 ACCCTTAACTTAAAAACACTAA
1 ACCCTTAACTTAAAAACCCTAA
43890554 ACCCTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
43890576 CCTCCTTAACTTAAAAACACTAA
1 AC-CCTTAACTTAAAAACCCTAA
43890599 ACCCTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
43890621 CCTCCTTAACTTAAAAACACTAA
1 AC-CCTTAACTTAAAAACCCTAA
43890644 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
43890665 ACCCTTAACTTAAAAATCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
43890687 CCCCTTTAACTTCAAAACCCT-A
1 ACCC-TTAACTTAAAAACCCTAA
* *
43890709 ACCCTTAACTAAAAAACACTAA
1 ACCCTTAACTTAAAAACCCTAA
43890731 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
43890752 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
43890773 ACCTAATTTAA-TTAAAAACCCTAA
1 ACC---CTTAACTTAAAAACCCTAA
43890797 AC
1 AC
43890799 TAAATTAATA
Statistics
Matches: 643, Mismatches: 85, Indels: 108
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.01
19 8 0.01
20 11 0.02
21 112 0.17
22 130 0.20
23 340 0.53
24 33 0.05
25 4 0.01
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
ACCCTTAACTTAAAAACCCTAA
Found at i:43890066 original size:45 final size:44
Alignment explanation
Indices: 43889994--43890796 Score: 713
Period size: 46 Copynumber: 18.0 Consensus size: 44
43889984 AACCATTAAT
* *
43889994 ACCCTTAACTTAAAAACCCTAATCTAATTTAA-TTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-A
*
43890039 ACCCTTAACTTAAAAACTCTAACCTAATTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
*
43890083 ACCCCCTTAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTA
1 A--CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
* * * *
43890129 ACCTAATTAAATTAAAAACCCTAACTTAATTTAA-TTAAAAATCCTAA
1 ACC--CTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-A
*
43890176 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TT-AAAA----A
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTA
* * *
43890215 ACCCTAAACTTAAAAACACTAACC-ACCTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTA-ATTAACTTAAAAACCCTA
* ***
43890259 ACCTAATTAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
* * *
43890305 ACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
** *
43890351 ACTTAATTTAA-TTAAAAATCCTAAACCCT-A--AACTTAAAAACCCTA
1 AC---CCTTAACTTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTA
* * *
43890396 ACCTAATTTAA-TTAAAAACTCTAACCCT-A--AACTTAAAAAACCTA
1 ACC---CTTAACTTAAAAACCCTAA-CCTAATTAACTTAAAAACCCTA
*
43890440 ACCCCCTGAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
1 A--CCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
* **
43890486 ACCTAATTAACTTAAAAACCCTAACCCCATTAACTTAAAAACCCTA
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
* *
43890532 ACCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAACCCTA
* *
43890575 ACCTCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 A-C-CCTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAACCCTA
* *
43890620 ACCTCCTTAACTTAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 A-C-CCTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAACCCTA
* *** *
43890665 ACCCTTAACTTAAAAATCCTAACCCCTTTAACTTCAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
* * *
43890709 ACCCTTAACTAAAAAACACTAAACC--CTTAACTTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCT-AACCTAATTAACTTAAAAACCCTA
43890752 ACCCTTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTA
43890796 A
1 A
43890797 ACTAAATTAA
Statistics
Matches: 659, Mismatches: 57, Indels: 85
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.01
39 26 0.04
40 4 0.01
42 8 0.01
43 74 0.11
44 116 0.18
45 191 0.29
46 217 0.33
47 15 0.02
48 3 0.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (44 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTA
Found at i:43890217 original size:39 final size:39
Alignment explanation
Indices: 43890136--43890259 Score: 128
Period size: 39 Copynumber: 3.1 Consensus size: 39
43890126 CTAACCTAAT
*
43890136 TAAA-TTAAAAACCCTAACTTAATTTAATTAAAAATCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATT--AAA----AAACCC
43890180 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCC
* **
43890219 TAAACTTAAAAACACTAACC-ACCTTAACTT-AAAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAAACCC
43890257 TAA
1 TAA
43890260 CCTAATTAAC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
38 16 0.22
39 27 0.36
43 3 0.04
44 4 0.05
45 24 0.32
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (39 bp):
TAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCC
Found at i:43890381 original size:199 final size:198
Alignment explanation
Indices: 43890026--43890711 Score: 881
Period size: 199 Copynumber: 3.4 Consensus size: 198
43890016 TCTAATTTAA
* *
43890026 TTAAAAAC-CTTAAACCCTTAACTTAAAAACTCTAACCTAATTAACTTAAAAACCCTAACCCCCT
1 TTAAAAACAC-TAACCCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCCT
43890090 TAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACT
65 TAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACT
43890155 TAATTTAATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCCT
130 TAATTTAATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCCT
43890220 AAAC
195 AAAC
43890224 TTAAAAACACTAACCACCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCCT
1 TTAAAAACACTAACC-CCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCCT
43890289 TAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACT
65 TAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACT
43890354 TAATTTAATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACTCTA
130 TAATTTAATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATT-AAAA----A
43890419 ACCCTAAAC
190 ACCCTAAAC
* ***
43890428 TTAAAAA-ACCTAACCCCCTGAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
1 TTAAAAACA-CTAA-CCCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCC
** * * * *
43890492 TTAACTTAAAAACCCTAACCCCATTAACTTAAAAACCCTAACC--CTTAACTTAAAAACACTAA-
64 TTAACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
** * * * * *
43890554 --ACCCTTAACTTAAAAACCCTAACCTCCTTAACTTAAAAACACTAAACCCTTAACTTAA--AAA
129 TTA-ATTTAA-TTAAAAATCCTAAAC-CCTAAACTTAAAAACCCT-AA-CC-TAATTTAATTAAA
* *
43890615 CCCTAACCTCCTTAAC
188 ----AAAC-CCTAAAC
* * * *
43890631 TTAAAAACACTAAACCCTTAACTTAAAAACCCTAACC--CTTAACTTAAAAATCCTAACCCCTTT
1 TTAAAAACACTAACCCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCCTT
*
43890694 AACTTCAAAACCCTAACC
66 AACTTAAAAACCCTAACC
43890712 CTTAACTAAA
Statistics
Matches: 438, Mismatches: 29, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
198 12 0.03
199 170 0.39
200 46 0.11
201 13 0.03
202 59 0.13
203 20 0.05
204 108 0.25
205 9 0.02
206 1 0.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (198 bp):
TTAAAAACACTAACCCCTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCCCCTT
AACTTAAAAACCCTAACCTAATTAACTTTAAAACCCTAACCTAATTAAATTAAAAACCCTAACTT
AATTTAATTAAAAATCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAAACCCTA
AAC
Found at i:43890801 original size:23 final size:23
Alignment explanation
Indices: 43890756--43890807 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
43890746 ACCCTAACCC
* *
43890756 TTAACTTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAAACTAAA
43890780 TTAATTAAAAACCCTAAACTAAA
1 TTAATTAAAAACCCTAAACTAAA
43890803 TTAAT
1 TTAAT
43890808 AATTTTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (23 bp):
TTAATTAAAAACCCTAAACTAAA
Found at i:43894202 original size:124 final size:125
Alignment explanation
Indices: 43893982--43894358 Score: 562
Period size: 124 Copynumber: 3.0 Consensus size: 125
43893972 CCCAAACATG
* *
43893982 CTACTATAGCAAAAGCGCGTCCACGAGGGCTCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
43894047 CGAGAAGCGATATTATACTATTTACTCAGAAACGT-TAAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
43894106 CTACTGTAGAAAAAGTGCGTCCACGGGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
*
43894171 CTAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * *
43894231 CTATTGTAGCAAAAGCGCGTCCACTAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *** *
43894295 CTAGAAGCGATTTTATACTATTTGA-TCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
66 CTAGAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
43894356 CTA
1 CTA
43894359 AAAAGCCTGG
Statistics
Matches: 229, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 156 0.68
125 73 0.32
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:43895997 original size:49 final size:49
Alignment explanation
Indices: 43895944--43896042 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43895934 CGAGTTGAAA
* * *
43895944 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43895993 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43896042 T
1 T
43896043 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43897464 original size:49 final size:49
Alignment explanation
Indices: 43897411--43897509 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43897401 CGAGTTGAAA
* * *
43897411 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43897460 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43897509 T
1 T
43897510 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43900404 original size:49 final size:49
Alignment explanation
Indices: 43900351--43900449 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43900341 CGAGTTGAAA
* * *
43900351 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43900400 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43900449 T
1 T
43900450 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43901874 original size:49 final size:49
Alignment explanation
Indices: 43901821--43901919 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43901811 CGAGTTGAAA
* * *
43901821 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43901870 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43901919 T
1 T
43901920 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43903342 original size:49 final size:49
Alignment explanation
Indices: 43903289--43903387 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43903279 CGAGTTGAAA
* * *
43903289 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43903338 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43903387 T
1 T
43903388 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43909217 original size:49 final size:49
Alignment explanation
Indices: 43909164--43909262 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
43909154 CGAGTTGAAA
* * *
43909164 TATAACTAGGGCTCCTAGTTGACAGTAGTTATGCGGTCATGGATTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
* ** * * *
43909213 TATAACTCGAGCCCCTAGTTGATGGTGGTTATGTGATCATGGGTTCAAG
1 TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
43909262 T
1 T
43909263 TAGAAACTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TATAACTAGAGCCCCTAGTTGACAGTAGTTATGCGATCATGGATTCAAG
Found at i:43911283 original size:17 final size:17
Alignment explanation
Indices: 43911261--43911294 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43911251 TTACAAAATC
*
43911261 ATATATGAATATATATT
1 ATATATAAATATATATT
*
43911278 ATATATAAATATTTATT
1 ATATATAAATATATATT
43911295 TAGTGACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATATAAATATATATT
Found at i:43911418 original size:5 final size:5
Alignment explanation
Indices: 43911408--43911452 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
43911398 CCATGCATAT
43911408 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
43911453 AACACCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:43911524 original size:35 final size:34
Alignment explanation
Indices: 43911470--43911545 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 34
43911460 AAAACCATGT
* * * * * *
43911470 ATATATATTATATATAATAAAGTCCATGCATATAA
1 ATATATTTTACATACAATAAAGCCCACGCACAT-A
43911505 ATATATTTTACATACAATAAAGCCCACGCACATA
1 ATATATTTTACATACAATAAAGCCCACGCACATA
43911539 ATATATT
1 ATATATT
43911546 ATATATATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.34
Consensus pattern (34 bp):
ATATATTTTACATACAATAAAGCCCACGCACATA
Found at i:43912947 original size:21 final size:20
Alignment explanation
Indices: 43912894--43912948 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
43912884 ACATCTTTTT
43912894 CAGAAGCCCG-AAGGCTAAA
1 CAGAAGCCCGTAAGGCTAAA
* *
43912913 CAGAAGCACATAAGTGCTAAA
1 CAGAAGCCCGTAAG-GCTAAA
*
43912934 CAGAAACCCGTAAGG
1 CAGAAGCCCGTAAGG
43912949 GTTGTACGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.28
20 4 0.14
21 17 0.59
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (20 bp):
CAGAAGCCCGTAAGGCTAAA
Found at i:43918884 original size:27 final size:27
Alignment explanation
Indices: 43918853--43919030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43918843 TAAATTGTAC
43918853 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43918880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43918906 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43918934 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43918962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43918989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43919016 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43919031 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43918967 original size:82 final size:81
Alignment explanation
Indices: 43918854--43919009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43918844 AAATTGTACA
* *
43918854 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43918918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43918935 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43919000 TGCGAGTTGA
65 TGCGAATTGA
43919010 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43919021 original size:82 final size:81
Alignment explanation
Indices: 43918850--43919030 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43918840 GATTAAATTG
* *
43918850 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43918915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43918931 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43918995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43919013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43919031 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43937909 original size:23 final size:23
Alignment explanation
Indices: 43937877--43937931 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 23
43937867 ATTGAGCTAC
*
43937877 AACCGGATATGACTTACTCGAAAG
1 AACC-GATATGACGTACTCGAAAG
43937901 AACCGATATGACGTACTCGAAAG
1 AACCGATATGACGTACTCGAAAG
43937924 AACCGATA
1 AACCGATA
43937932 AGAATTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (23 bp):
AACCGATATGACGTACTCGAAAG
Found at i:43939259 original size:105 final size:101
Alignment explanation
Indices: 43939049--43939266 Score: 226
Period size: 105 Copynumber: 2.1 Consensus size: 101
43939039 AATTGACAGG
* * * * *
43939049 GTAAGACCATGGTTGGACCATGACAATGTTTAAATGTAAGACCATAGCTGGGTTATGGCATTTTA
1 GTAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGGGATATGACATTTGA
**
43939114 GTGAAAAGACCATAACTGGATTATGACACCTTGAAC
66 GTGAAAAGACCATAACTGGATTATGACACCTCAAAC
* * *
43939150 GTAAGACCATGGTTGGACCATGGCAATATAGATACATGTGTAAGACCATAGTTGGGATATGACAT
1 GTAAGACCATGGTTGGACCATGACAATAT--ATA-A-ATGTAAGACCATAGCTGGGATATGACAT
* * * *
43939215 TCTGA-TGATAAGACCATAAGTAGG-TTATGGCA-CTACAAAT
62 T-TGAGTGAAAAGACCATAACT-GGATTATGACACCT-CAAAC
43939255 GTAAGACCATGG
1 GTAAGACCATGG
43939267 CAATGCATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
101 27 0.28
103 2 0.02
104 3 0.03
105 60 0.62
106 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
GTAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGGGATATGACATTTGA
GTGAAAAGACCATAACTGGATTATGACACCTCAAAC
Found at i:43939266 original size:22 final size:22
Alignment explanation
Indices: 43939241--43939286 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
43939231 TAAGTAGGTT
*
43939241 ATGGCACTACAAATGTAAGACC
1 ATGGCAATACAAATGTAAGACC
* *
43939263 ATGGCAATGCATATGTAAGACC
1 ATGGCAATACAAATGTAAGACC
43939285 AT
1 AT
43939287 AGTTGGACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
ATGGCAATACAAATGTAAGACC
Found at i:43939956 original size:78 final size:78
Alignment explanation
Indices: 43939827--43939986 Score: 284
Period size: 78 Copynumber: 2.1 Consensus size: 78
43939817 ATGTTATGTC
43939827 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
1 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
*
43939892 TGAGTGCAGGTTA
66 TGAGTGAAGGTTA
* * *
43939905 ATGTTGAGAACATGTTTTGGCTTGTATTGATTACTTGGTTGGGTTATATTAGTGTATGTGAATGT
1 ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
43939970 TGAGTGAAGGTTA
66 TGAGTGAAGGTTA
43939983 ATGT
1 ATGT
43939987 CAAAATGGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.43
Consensus pattern (78 bp):
ATGTTGAGAACATGTTTTAGCTTGTATTGATTACTTGGTTGGGATATATTAGTATATGTGAATGT
TGAGTGAAGGTTA
Found at i:43941444 original size:144 final size:144
Alignment explanation
Indices: 43941184--43941472 Score: 524
Period size: 144 Copynumber: 2.0 Consensus size: 144
43941174 AGACATTTTT
*
43941184 TATCAACCCAATCTATAGAATTGGTTTTCAACCAGAGCACAAAATTGCACGAGCTTCGATCAAGA
1 TATCAACACAATCTATAGAATTGGTTTTCAACCAGAGCACAAAATTGCACGAGCTTCGATCAAGA
43941249 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGCTTGAAATATAGATATCTAAT
66 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGCTTGAAATATAGATATCTAAT
43941314 GTCACTAAACCCTG
131 GTCACTAAACCCTG
* *
43941328 TATCAACACAATCTATAGATTTGGTTTTCAACCAGAGCATAAAATTGCACGAGCTTCGATCAAGA
1 TATCAACACAATCTATAGAATTGGTTTTCAACCAGAGCACAAAATTGCACGAGCTTCGATCAAGA
* * *
43941393 ATTAGAAGGAAAGTGTCGACTTCAAGTTAGAGAAGATTTTCGATCTTGAAATATAGATATCTAAT
66 ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGCTTGAAATATAGATATCTAAT
43941458 GTCACTAAACCCTG
131 GTCACTAAACCCTG
43941472 T
1 T
43941473 TAGATATGAT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 139 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (144 bp):
TATCAACACAATCTATAGAATTGGTTTTCAACCAGAGCACAAAATTGCACGAGCTTCGATCAAGA
ATTAGAAGGAAAGTGTCGACTTCAAGCTAGAGAAGATTTTCAAGCTTGAAATATAGATATCTAAT
GTCACTAAACCCTG
Found at i:43944511 original size:50 final size:50
Alignment explanation
Indices: 43944441--43944566 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 50
43944431 TTTGGAAAGT
* * *
43944441 AAGATTCGCCATTGTTGCTTTAATCTTTTTAACTT-CAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAA-TTGCAATATCGGGGAAGC
* *
43944491 ATGATTCGCTGTTGTAGCTTTAATCTTTTTAATTGCAATATCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATATCGGGGAAGC
* *
43944541 AAGATTCACCGTTGTGGCTTTAATCT
1 AAGATTCGCCGTTGTAGCTTTAATCT
43944567 GCTTTACTGC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
49 2 0.03
50 64 0.97
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATATCGGGGAAGC
Found at i:43944898 original size:142 final size:142
Alignment explanation
Indices: 43944642--43945006 Score: 649
Period size: 142 Copynumber: 2.6 Consensus size: 142
43944632 GAGATAAGAC
*
43944642 CTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
1 CTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
43944707 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
43944772 TTTGGCTTCAAT
131 TTTGGCTTCAAT
*
43944784 CTGATGTGATCTACTCTACTATAACTTCAGAGCGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
43944849 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
43944914 TTTGGCTTCAAT
131 TTTGGCTTCAAT
*** * ** *
43944926 CTGATCCAATCTACCCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
43944991 TAATCTCAGGGAGATA
66 TAATCTCAGGGAGATA
43945007 AGATCTGTAA
Statistics
Matches: 213, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 213 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (142 bp):
CTGATGTGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTTAGGGAGATAAGATT
TTTGGCTTCAAT
Found at i:43946272 original size:13 final size:13
Alignment explanation
Indices: 43946239--43946279 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
43946229 TTAGCCTCTC
43946239 CATTTTTACTCTTT
1 CATTTTT-CTCTTT
*
43946253 CATTTTTCTTTTT
1 CATTTTTCTCTTT
43946266 CATTTTTCATCTTT
1 CATTTTTC-TCTTT
43946280 TTTTTTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTTTCTCTTT
Found at i:43947141 original size:28 final size:29
Alignment explanation
Indices: 43947110--43947185 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
43947100 TCTTTTTTCA
*
43947110 TTTTCATTTTGACTTTGATTGATTTC-TC
1 TTTTTATTTTGACTTTGATTGATTTCTTC
**
43947138 TTTTTTACTTTTGACTTTGATTTTTTTCTTC
1 -TTTTTA-TTTTGACTTTGATTGATTTCTTC
* *
43947169 -TTTTGTTTTGATTTTGA
1 TTTTTATTTTGACTTTGA
43947186 GTTTTTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 11 0.28
29 9 0.22
30 18 0.45
31 2 0.05
ACGTcount: A:0.12, C:0.11, G:0.11, T:0.67
Consensus pattern (29 bp):
TTTTTATTTTGACTTTGATTGATTTCTTC
Found at i:43947166 original size:30 final size:28
Alignment explanation
Indices: 43947102--43947193 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 28
43947092 TTTTTCTCTC
43947102 TTTT-TTCATTTTCATTTTGACTTTGATTGAT
1 TTTTCTTC-TTTTC-TTTTGACTTTGATT--T
*
43947133 TTCTCTT-TTTTACTTTTGACTTTGATTT
1 TTTTCTTCTTTT-CTTTTGACTTTGATTT
* *
43947161 TTTTCTTCTTTTGTTTTGATTTTGAGTTT
1 TTTTCTTCTTTTCTTTTGACTTTGA-TTT
43947190 TTTT
1 TTTT
43947194 TGCTCCCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 18 0.34
29 11 0.21
30 18 0.34
31 4 0.08
32 2 0.04
ACGTcount: A:0.11, C:0.10, G:0.10, T:0.70
Consensus pattern (28 bp):
TTTTCTTCTTTTCTTTTGACTTTGATTT
Found at i:43951605 original size:23 final size:23
Alignment explanation
Indices: 43951575--43951623 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
43951565 GCAAAGGTGA
43951575 TAATTTGAAAATAAAACACACAT
1 TAATTTGAAAATAAAACACACAT
43951598 TAATTTGAAAATAAAACACACAT
1 TAATTTGAAAATAAAACACACAT
43951621 TAA
1 TAA
43951624 CGAATCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (23 bp):
TAATTTGAAAATAAAACACACAT
Found at i:43961112 original size:42 final size:42
Alignment explanation
Indices: 43961016--43961170 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
43961006 GCACATAAGT
* * * * * ** *
43961016 GCTAAACGGAAACTCATAAAGGTTGAACGAAAGCTCCTAGGA
1 GCTAAACTGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGA
* * *
43961058 GCTTAACAGAAACCTATAAGGGTTAAACTAAAGCTCAGAAA-A
1 GCTAAACTGAAACCCATAAGGGTTAAACTAAAGCTCA-AAAGA
* * *
43961100 GCTAAACTGAAACCCATTAGAGTTAAACTGAAGCTCAAAAGA
1 GCTAAACTGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGA
* * *
43961142 GATGAACTGAAACCCAGAAGGGTTAAACT
1 GCTAAACTGAAACCCATAAGGGTTAAACT
43961171 GAAACTAATA
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 3 0.03
42 86 0.96
43 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
GCTAAACTGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGA
Found at i:43961126 original size:21 final size:21
Alignment explanation
Indices: 43961102--43961175 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
43961092 TCAGAAAAGC
**
43961102 TAAACTGAAACCCATTAGAGT
1 TAAACTGAAACCCAAAAGAGT
* * *
43961123 TAAACTGAAGCTCAAAAGAGA
1 TAAACTGAAACCCAAAAGAGT
* * *
43961144 TGAACTGAAACCCAGAAGGGT
1 TAAACTGAAACCCAAAAGAGT
43961165 TAAACTGAAAC
1 TAAACTGAAAC
43961176 TAATATGAGT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
TAAACTGAAACCCAAAAGAGT
Found at i:43971716 original size:21 final size:21
Alignment explanation
Indices: 43971690--43971758 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
43971680 CACAGAAGCA
* *
43971690 CATAAGTGCTAAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
* * * *
43971711 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAACC
* *
43971732 CACAAGAGCTGAACAGAAACC
1 CATAAGAGCTGAACGGAAACC
43971753 CATAAG
1 CATAAG
43971759 GGTTAAACTG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAACC
Found at i:43971752 original size:42 final size:42
Alignment explanation
Indices: 43971705--43971816 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
43971695 GTGCTAAACG
*
43971705 GAAACCCATAAGGGTTGAACGGAAGCTCACAAGAGCTGAACA
1 GAAACCCATAAGGGTTAAACGGAAGCTCACAAGAGCTGAACA
* * * *
43971747 GAAACCCATAAGGGTTAAACTGTAGCTCAGAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACGGAAGCTCACAAGAGCTGAACA
* *
43971789 GAAA-CC-TGAAGGGTTAAACTGAAACTCA
1 GAAACCCAT-AAGGGTTAAACGGAAGCTCA
43971817 TATGATTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 20 0.32
42 41 0.66
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCACAAGAGCTGAACA
Found at i:43974085 original size:20 final size:18
Alignment explanation
Indices: 43974060--43974099 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
43974050 TTATTTGGGG
43974060 ATGAAGGGTGAAAAGTAAAA
1 ATGAAGGG-GAAAA-TAAAA
43974080 ATGAAGGGGAAAATAAAA
1 ATGAAGGGGAAAATAAAA
43974098 AT
1 AT
43974100 TTTTGAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.15
Consensus pattern (18 bp):
ATGAAGGGGAAAATAAAA
Found at i:43976213 original size:85 final size:85
Alignment explanation
Indices: 43976063--43976220 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
43976053 AATATAACAT
* *
43976063 ACTTATGTTGTTGCAGGTATGTCACAGAATCATCTGAAATTGGATTCTAACCTAATATCTAACAT
1 ACTTATGTTGTTGCAGGTATGCCACAGAATCATCTGAAATTGGATTCTAACATAATATCTAACAT
*
43976128 TGTCTTACTTATTTTAAAAA
66 TATCTTACTTATTTTAAAAA
* * * * *
43976148 ACTTGTGTTGTTGCAGGTATGCCACA-AGATCAT-TCGAAATTGGATTCTGACATGATCTCTGAC
1 ACTTATGTTGTTGCAGGTATGCCACAGA-ATCATCT-GAAATTGGATTCTAACATAATATCTAAC
43976211 ATTATCTTAC
64 ATTATCTTAC
43976221 CTATGATGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (85 bp):
ACTTATGTTGTTGCAGGTATGCCACAGAATCATCTGAAATTGGATTCTAACATAATATCTAACAT
TATCTTACTTATTTTAAAAA
Found at i:43977867 original size:77 final size:73
Alignment explanation
Indices: 43977776--43978035 Score: 227
Period size: 75 Copynumber: 3.6 Consensus size: 73
43977766 TCATTGTTTG
*
43977776 GTAAATTGTAAATAAGTATATATTGTTGATGTAAAATGCAACAAAATACAATATAAACATTTTTT
1 GTAAATTGTAAATAAGTATATATTGTTGATGTAAAATGCAATAAAATACAATAT-AA-A--TTTT
*
43977841 TTCATTTTTTTC
62 TTAATTTTTTTC
* * * * *
43977853 TTAGATTGTAAATAAGTATATTATTG-AGAATGCATACAATAG-AATAAACTACAA-ATAAATTT
1 GTAAATTGTAAATAAGTATA-TATTGTTG-ATG--TAAAAT-GCAATAAAATACAATATAAATTT
43977915 TTTAATTTTTTTC
61 TTTAATTTTTTTC
* * * *
43977928 GTAAATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAAT-T---TTTTTT-A
1 GTAAATTGTAAATAAGTATATATTGTTGATGTAAAATGCAATAAAATACAATATAAATTTTTTAA
43977988 TTTTTTT-
66 TTTTTTTC
* * * *
43977995 GTAGACTGTAAATAA--ATATATTATTGATGTAAAATACAATA
1 GTAAATTGTAAATAAGTATATATTGTTGATGTAAAATGCAATA
43978036 GAACTTTTTT
Statistics
Matches: 156, Mismatches: 19, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
65 25 0.16
67 13 0.08
68 8 0.05
69 6 0.04
72 16 0.10
74 6 0.04
75 34 0.22
77 20 0.13
78 10 0.06
79 2 0.01
80 15 0.10
81 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (73 bp):
GTAAATTGTAAATAAGTATATATTGTTGATGTAAAATGCAATAAAATACAATATAAATTTTTTAA
TTTTTTTC
Found at i:43978038 original size:65 final size:67
Alignment explanation
Indices: 43977912--43978038 Score: 195
Period size: 65 Copynumber: 1.9 Consensus size: 67
43977902 TACAAATAAA
*
43977912 TTTTTTAATTTTTTTCGTAAATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATAC
1 TTTTTTAATTTTTTTCGTAAACTGTAAATAAG-ATATATTATTGATATAAAATACAATAGAATAC
43977977 AAT
65 AAT
* * *
43977980 TTTTTTTATTTTTTT-GTAGACTGTAAATAA-ATATATTATTGATGTAAAATACAATAGAA
1 TTTTTTAATTTTTTTCGTAAACTGTAAATAAGATATATTATTGATATAAAATACAATAGAA
43978039 CTTTTTTAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 28 0.51
67 13 0.24
68 14 0.25
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (67 bp):
TTTTTTAATTTTTTTCGTAAACTGTAAATAAGATATATTATTGATATAAAATACAATAGAATACA
AT
Found at i:43978256 original size:6 final size:6
Alignment explanation
Indices: 43978245--43978301 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
43978235 CTCCTTATCT
* * * * *
43978245 TCTTCA TCTTCA TCTTCA TCTTCA CCTTCA CCTTTA TTTTGA TCTTCA
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA
*
43978293 TATTCA TCT
1 TCTTCA TCT
43978302 CGTTCCTTCG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.18, C:0.30, G:0.02, T:0.51
Consensus pattern (6 bp):
TCTTCA
Found at i:43983513 original size:8 final size:7
Alignment explanation
Indices: 43983467--43983534 Score: 91
Period size: 7 Copynumber: 9.4 Consensus size: 7
43983457 AAGCTCAAAC
43983467 TAGGGTT
1 TAGGGTT
43983474 TAGGGTT
1 TAGGGTT
43983481 TAGGGTT
1 TAGGGTT
**
43983488 TATAGTT
1 TAGGGTT
*
43983495 TAGTGTT
1 TAGGGTT
43983502 TAGGGTTT
1 TAGGG-TT
43983510 TAGGGTTT
1 TAGGG-TT
43983518 TAGGGTT
1 TAGGGTT
43983525 TAGGGTT
1 TAGGGTT
43983532 TAG
1 TAG
43983535 TACTAATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
7 40 0.73
8 15 0.27
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:43992685 original size:15 final size:16
Alignment explanation
Indices: 43992661--43992696 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43992651 TATATATTTG
*
43992661 AAAAAATTTTCAAAGC
1 AAAAATTTTTCAAAGC
*
43992677 AAAACTTTTTCAAAGC
1 AAAAATTTTTCAAAGC
43992693 AAAA
1 AAAA
43992697 TAATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAAATTTTTCAAAGC
Found at i:43992810 original size:11 final size:10
Alignment explanation
Indices: 43992780--43992840 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 10
43992770 TTCTAGAAAA
43992780 TTTT-TAATT
1 TTTTATAATT
*
43992789 TTTTA-ACTT
1 TTTTATAATT
43992798 TTTTATATATT
1 TTTTATA-ATT
* *
43992809 TTTTAGATTT
1 TTTTATAATT
*
43992819 TTTTTTGAATT
1 TTTTAT-AATT
43992830 TTTTATAATT
1 TTTTATAATT
43992840 T
1 T
43992841 AAAAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 12 0.30
10 12 0.30
11 16 0.40
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTATAATT
Found at i:43999636 original size:18 final size:18
Alignment explanation
Indices: 43999605--43999643 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43999595 GGCGTGTAGG
* *
43999605 CCACATGGGTATGTGGAC
1 CCACACGGGCATGTGGAC
*
43999623 CCACACGGGCATGTGGGC
1 CCACACGGGCATGTGGAC
43999641 CCA
1 CCA
43999644 AAAATTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (18 bp):
CCACACGGGCATGTGGAC
Found at i:44009891 original size:19 final size:19
Alignment explanation
Indices: 44009854--44009891 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44009844 AGAAAAATGG
*
44009854 TGGAAGCAATGAAAGAATA
1 TGGAAGCAATGAAACAATA
44009873 TGGAA-CAATGAATACAATA
1 TGGAAGCAATGAA-ACAATA
44009892 ATTTAGAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.18
Consensus pattern (19 bp):
TGGAAGCAATGAAACAATA
Found at i:44014029 original size:27 final size:27
Alignment explanation
Indices: 44013991--44014045 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
44013981 TTAAGAGTCC
**
44013991 ATTCGTAATATTTTCTAGTACTTTGCA
1 ATTCGTAATATTTGATAGTACTTTGCA
44014018 ATTCGTAATATTTGATAGTACTTTGCA
1 ATTCGTAATATTTGATAGTACTTTGCA
44014045 A
1 A
44014046 AGGTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (27 bp):
ATTCGTAATATTTGATAGTACTTTGCA
Found at i:44015848 original size:15 final size:15
Alignment explanation
Indices: 44015828--44015870 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
44015818 TCTTATATAC
* *
44015828 TGAAACTTTAGATTG
1 TGAAACTATAGATTA
*
44015843 TGAAACTATAGACTA
1 TGAAACTATAGATTA
44015858 TGAAACTATAGAT
1 TGAAACTATAGAT
44015871 AGGAAACTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (15 bp):
TGAAACTATAGATTA
Found at i:44015878 original size:14 final size:14
Alignment explanation
Indices: 44015829--44015878 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
44015819 CTTATATACT
* *
44015829 GAAACTTTAGATTG
1 GAAACTATAGATAG
*
44015843 TGAAACTATAGACTAT
1 -GAAACTATAGA-TAG
44015859 GAAACTATAGATAG
1 GAAACTATAGATAG
44015873 GAAACT
1 GAAACT
44015879 GTGACTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.27
15 21 0.70
16 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (14 bp):
GAAACTATAGATAG
Found at i:44018073 original size:23 final size:23
Alignment explanation
Indices: 44018042--44018255 Score: 214
Period size: 23 Copynumber: 9.3 Consensus size: 23
44018032 AGTGTTATTG
* *
44018042 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACAGCTACAT
* * *
44018065 TTCAATGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTACAGCTACAT
*
44018088 ATCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTACAGCTACAT
*
44018111 ATCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTACAGCTACAT
* *
44018134 ATCAGTGGCAGCTTC-GACTACAT
1 ATCAGTGGTAGCTACAG-CTACAT
* * *
44018157 TTCAATGGTAGCTACAGTTACAT
1 ATCAGTGGTAGCTACAGCTACAT
* * *
44018180 GTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACAGCTACAT
* * * * *
44018203 TTTAGTGGTAGCTACGGCTGCGT
1 ATCAGTGGTAGCTACAGCTACAT
* *
44018226 ATCAGTGGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTACAGCTACAT
44018249 ATCAGTG
1 ATCAGTG
44018256 TGGCACTTAT
Statistics
Matches: 158, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
22 1 0.01
23 156 0.99
24 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACAGCTACAT
Found at i:44018095 original size:46 final size:46
Alignment explanation
Indices: 44018042--44018248 Score: 279
Period size: 46 Copynumber: 4.5 Consensus size: 46
44018032 AGTGTTATTG
44018042 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
* * * * *
44018088 ATCAGTGGTAGCTACAGCTACGTATCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
* * * *
44018134 ATCAGTGGCAGCTTCGACTACATTTCAATGGTAGCTACAGTTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
* * * * *
44018180 GTCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTACGGCTGCGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
*
44018226 ATCAGTGGTAGCTTCTGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44018249 ATCAGTGTGG
Statistics
Matches: 136, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 136 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACAGCTACGT
Found at i:44026595 original size:19 final size:19
Alignment explanation
Indices: 44026568--44026605 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
44026558 CCATTAATTG
*
44026568 TTTATACTTTTCTATTCTA
1 TTTAAACTTTTCTATTCTA
44026587 TTTAAACTTTTCTATTCTA
1 TTTAAACTTTTCTATTCTA
44026606 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAACTTTTCTATTCTA
Done.